Variant report

Variant	rs3018
Chromosome Location	chr6:5938368-5938369
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:5931357..5934310-chr6:5936528..5940681,4	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NRN1-3	chr6:5937968-5938387	NONHSAT107532

Extended variants
information (count: 12 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs13197916	0.86[ASN][1000 genomes]
rs1885729	0.89[ASN][1000 genomes]
rs34978519	0.90[ASN][1000 genomes]
rs4960146	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6901581	0.90[ASN][1000 genomes]
rs6912637	0.90[ASN][1000 genomes]
rs6919620	0.91[CHB][hapmap];0.86[CHD][hapmap];0.84[JPT][hapmap]
rs6935416	0.90[ASN][1000 genomes]
rs7770525	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9378995	0.91[CHB][hapmap];0.81[CHD][hapmap]
rs9405882	0.91[CHB][hapmap];0.81[CHD][hapmap]
rs998360	1.00[CHB][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3018	LYRM4	cis	parietal	SCAN
rs3018	GMDS	cis	cerebellum	SCAN

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5936000-5938400	Enhancers	Muscle Satellite Cultured Cells	--
2	chr6:5936000-5938400	Enhancers	NHDF-Ad	bronchial
3	chr6:5936200-5939000	Enhancers	Fetal Muscle Leg	muscle
4	chr6:5936400-5938800	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr6:5936400-5940600	Weak transcription	Right Atrium	heart
6	chr6:5936600-5938400	Enhancers	Brain Germinal Matrix	brain
7	chr6:5936800-5938600	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr6:5937000-5938600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr6:5937200-5938600	Enhancers	HSMM	muscle
10	chr6:5937200-5940600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr6:5937200-5940600	Weak transcription	HMEC	breast
12	chr6:5937400-5938400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr6:5937400-5938600	Enhancers	HSMMtube	muscle
14	chr6:5937400-5940600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr6:5937600-5938400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr6:5937600-5940200	Weak transcription	Osteobl	bone
17	chr6:5937600-5940600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr6:5937800-5938600	Enhancers	Fetal Brain Male	brain
19	chr6:5937800-5938600	Enhancers	Fetal Brain Female	brain
20	chr6:5937800-5938800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr6:5937800-5939800	Enhancers	Fetal Muscle Trunk	muscle
22	chr6:5938000-5938600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr6:5938000-5938600	Enhancers	Brain Inferior Temporal Lobe	brain
24	chr6:5938000-5939600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr6:5938000-5940600	Weak transcription	NHLF	lung
26	chr6:5938000-5940800	Weak transcription	NH-A	brain
27	chr6:5938200-5940600	Weak transcription	Adipose Nuclei	Adipose

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